<entry xmlns="http://pdbe.org/empiar" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="https://ftp.ebi.ac.uk/pub/databases/emtest/empiar/schema/empiar.xsd" accessionCode="EMPIAR-10433" schemaVersion="0.65" public="true">
    <admin>
        <currentStatus>REL</currentStatus>
        <keyDates>
            <depositionDate>2020-05-29</depositionDate>
            <releaseDate>2020-06-16</releaseDate>
            <updateDate>2021-01-22</updateDate>
        </keyDates>
        <title>Characterization of the SARS-CoV-2 S Protein: Biophysical, Biochemical, Structural, and Antigenic Analysis</title>
        <correspondingAuthor private="true">
            <authorORCID>0000-0003-0863-7826</authorORCID>
            <firstName>Jeffrey</firstName>
            <middleName>B</middleName>
            <lastName>Bonanno</lastName>
            <organization type="academic">Anbert Einstein College of Medicine</organization>
            <townOrCity>Bronx</townOrCity>
            <stateOrProvince>NY</stateOrProvince>
            <country>United States</country>
            <postOrZipCode>10461</postOrZipCode>
        </correspondingAuthor>
        <principalInvestigator private="true">
            <authorORCID>0000-0002-4863-0015</authorORCID>
            <firstName>Jonathan</firstName>
            <lastName>Lai</lastName>
            <organization type="academic">Albert Einstein College of Medicine</organization>
            <townOrCity>Bronx</townOrCity>
            <stateOrProvince>NY</stateOrProvince>
            <country>United States</country>
            <postOrZipCode>10461</postOrZipCode>
        </principalInvestigator>
        <principalInvestigator private="true">
            <authorORCID>0000-0002-8014-7269</authorORCID>
            <firstName>Edward</firstName>
            <lastName>Eng</lastName>
            <organization type="academic">New York Structural Biology Center</organization>
            <townOrCity>New York</townOrCity>
            <stateOrProvince>NY</stateOrProvince>
            <country>United States</country>
            <postOrZipCode>10027</postOrZipCode>
        </principalInvestigator>
        <principalInvestigator private="true">
            <authorORCID>0000-0003-2591-5234</authorORCID>
            <firstName>Steven</firstName>
            <middleName>C</middleName>
            <lastName>Almo</lastName>
            <organization type="academic">Albert Einstein College of Medicine</organization>
            <townOrCity>Bronx</townOrCity>
            <stateOrProvince>NY</stateOrProvince>
            <country>United States</country>
            <postOrZipCode>10461</postOrZipCode>
        </principalInvestigator>
        <authorsList>
            <author authorORCID="0000-0003-1409-3554">Herrera NG</author>
            <author>Morano NC</author>
            <author authorORCID="0000-0001-8760-4496">Celikgil A</author>
            <author authorORCID="0000-0001-8760-4496">Georgiev GI</author>
            <author>Malonis R</author>
            <author>Lee JH</author>
            <author>Tong K</author>
            <author>Vergnolle O</author>
            <author>Massimi A</author>
            <author authorORCID="0000-0002-4086-0895">Yen LY</author>
            <author authorORCID="0000-0001-8634-2279">Noble AJ</author>
            <author authorORCID="0000-0003-0188-9799">Kopylov M</author>
            <author authorORCID="0000-0003-0863-7826">Bonanno JB</author>
            <author>Garrett-Thomson SC</author>
            <author>Hayes DB</author>
            <author>Bortz R</author>
            <author>Wirchnianski A</author>
            <author>Florez C</author>
            <author>Laudermilch E</author>
            <author>Haslwanter D</author>
            <author>Fels J</author>
            <author>Dieterle M</author>
            <author>Jangra R</author>
            <author>Barnhill J</author>
            <author>Mengotto A</author>
            <author>Kimmel D</author>
            <author>Daily J</author>
            <author>Pirofski L</author>
            <author>Chandran K</author>
            <author authorORCID="0000-0003-0048-1716">Brenowitz M</author>
            <author>Garforth S</author>
            <author authorORCID="0000-0002-8014-7269">Eng E</author>
            <author authorORCID="0000-0002-4863-0015">Lai JR</author>
            <author authorORCID="0000-0003-2591-5234">Almo SC</author>
        </authorsList>
        <datasetSize units="GB">484.3</datasetSize>
        <entryDOI>10.6019/EMPIAR-10433</entryDOI>
        <experimentType>EMDB</experimentType>
    </admin>
    <crossReferences>
        <relatedEMDBEntries>
            <emdbEntry>EMD-22078</emdbEntry>
        </relatedEMDBEntries>
        <citationList>
            <universalCitation>
                <journalCitation published="true" preprint="false">
                    <author authorORCID="0000-0003-1409-3554" order="1">Herrera NG</author>
                    <author order="2">Morano NC</author>
                    <author authorORCID="0000-0001-8760-4496" order="3">Celikgil A</author>
                    <author authorORCID="0000-0001-8760-4496" order="4">Georgiev GI</author>
                    <author order="5">Malonis R</author>
                    <author order="6">Lee JH</author>
                    <author order="7">Tong K</author>
                    <author order="8">Vergnolle O</author>
                    <author order="9">Massimi A</author>
                    <author authorORCID="0000-0002-4086-0895" order="10">Yen LY</author>
                    <author authorORCID="0000-0001-8634-2279" order="11">Noble AJ</author>
                    <author authorORCID="0000-0003-0188-9799" order="12">Kopylov M</author>
                    <author authorORCID="0000-0003-0863-7826" order="13">Bonanno JB</author>
                    <author order="14">Garrett-Thomson SC</author>
                    <author order="15">Hayes DB</author>
                    <author order="16">Bortz R</author>
                    <author order="17">Wirchnianski A</author>
                    <author order="18">Florez C</author>
                    <author order="19">Laudermilch E</author>
                    <author order="20">Haslwanter D</author>
                    <author order="21">Fels J</author>
                    <author order="22">Dieterle M</author>
                    <author order="23">Jangra R</author>
                    <author order="24">Barnhill J</author>
                    <author order="25">Mengotto A</author>
                    <author order="26">Kimmel D</author>
                    <author order="27">Daily J</author>
                    <author order="28">Pirofski L</author>
                    <author order="29">Chandran K</author>
                    <author authorORCID="0000-0003-0048-1716" order="30">Brenowitz M</author>
                    <author order="31">Garforth S</author>
                    <author authorORCID="0000-0002-8014-7269" order="32">Eng E</author>
                    <author authorORCID="0000-0002-4863-0015" order="33">Lai JR</author>
                    <author authorORCID="0000-0003-2591-5234" order="34">Almo SC</author>
                    <title>Characterization of the SARS-CoV-2 S Protein: Biophysical, Biochemical, Structural, and Antigenic Analysis</title>
                    <journal>ACS omega</journal>
                    <journalAbbreviation>ACS Omega</journalAbbreviation>
                    <country></country>
                    <year>2020</year>
                    <language>English</language>
                    <externalReferences type="doi">10.1021/acsomega.0c03512</externalReferences>
                </journalCitation>
            </universalCitation>
        </citationList>
    </crossReferences>
    <imageSet>
        <name>Unaligned multi frame micrographs of SARS CoV-2 SPIKE protein produced in CHO cells</name>
        <directory>/data</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>1280</numImagesOrTiltSeries>
        <framesPerImage>50</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>5760</imageWidth>
            <pixelWidth>variable</pixelWidth>
            <imageHeight>4092</imageHeight>
            <pixelHeight>variable</pixelHeight>
        </dimensions>
        <details>Topaz picking model exported from CryoSPARC. To use the model, you can:
1) Import it back into CryoSPARC by following these instructions: https://discuss.cryosparc.com/t/import-the-topaz-covid-19-spike-picking-model-to-use-in-your-projects/4708
2) Use the Topaz .sav file (located in P257_J75_topaz_model/J75/models/model_epoch11.sav) to pick with the Topaz standalone GUI or any other software that integrates Topaz (e.g. Relion or Scipion).</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Processed data - aligned frame sum with dose-weighting</name>
        <directory>/data</directory>
        <category>micrographs - single frame</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>1280</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>32 BIT FLOAT</voxelType>
        <dimensions>
            <imageWidth>5760</imageWidth>
            <pixelWidth>1.058</pixelWidth>
            <imageHeight>4092</imageHeight>
            <pixelHeight>1.058</pixelHeight>
        </dimensions>
        <details>The high mag images (-a-DW.mrc) are 66.49 e-/A2 dose at 1.058Å/px with a dimension of 5760x4092px

Topaz picking model exported from CryoSPARC. To use the model, you can:
1) Import it back into CryoSPARC by following these instructions: https://discuss.cryosparc.com/t/import-the-topaz-covid-19-spike-picking-model-to-use-in-your-projects/4708
2) Use the Topaz .sav file (located in P257_J75_topaz_model/J75/models/model_epoch11.sav) to pick with the Topaz standalone GUI or any other software that integrates Topaz (e.g. Relion or Scipion).</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
</entry>
